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Bio::SeqAnalysisParserUser Contributed Perl DocumentBio::SeqAnalysisParserI(3)

NAME
       Bio::SeqAnalysisParserI - Sequence analysis output parser interface

SYNOPSIS
	   # get a SeqAnalysisParserI somehow, e.g. by
	   my $parser =	Bio::Factory::SeqAnalysisParserFactory->get_parser(
				   '-input' => 'inputfile', '-method' => 'genscan');
	   while( my $feature =	$parser->next_feature()	) {
	       print "Feature from ", $feature->start, " to ", $feature->end, "\n";
	   }

DESCRIPTION
       SeqAnalysisParserI is a generic interface for describing	sequence
       analysis	result parsers.	Sequence analysis in this sense	is a search
       for similarities	or the identification of features on the sequence,
       like a databank search or a a gene prediction result.

       The concept behind this interface is to have a generic interface	in
       sequence	annotation pipelines (as used e.g. in high-throughput
       automated sequence annotation). This interface enables plug-and-play
       for new analysis	methods	and their corresponding	parsers	without	the
       necessity for modifying the core	of the annotation pipeline. In this
       concept the annotation pipeline has to rely on only a list of methods
       for which to process the	results, and a factory from which it can
       obtain the corresponding	parser implementing this interface.

       See Bio::Factory::SeqAnalysisParserFactoryI and
       Bio::Factory::SeqAnalysisParserFactory for interface and	an
       implementation of the corresponding factory.

FEEDBACK
   Mailing Lists
       User feedback is	an integral part of the	evolution of this and other
       Bioperl modules.	Send your comments and suggestions preferably
	to one of the Bioperl mailing lists.  Your participation is much
       appreciated.

	 bioperl-l@bioperl.org			- General discussion
	 http://bioperl.org/wiki/Mailing_lists	- About	the mailing lists

   Support
       Please direct usage questions or	support	issues to the mailing list:

       bioperl-l@bioperl.org

       rather than to the module maintainer directly. Many experienced and
       reponsive experts will be able look at the problem and quickly address
       it. Please include a thorough description of the	problem	with code and
       data examples if	at all possible.

   Reporting Bugs
       Report bugs to the Bioperl bug tracking system to help us keep track
       the bugs	and their resolution.  Bug reports can be submitted via	the
       web:

	 https://github.com/bioperl/bioperl-live/issues

AUTHOR - Hilmar	Lapp, Jason Stajich
       Email Hilmar Lapp <hlapp@gmx.net>, Jason	Stajich	<jason@bioperl.org>

APPENDIX
       The rest	of the documentation details each of the object	methods.
       Internal	methods	are usually preceded with a _

   next_feature
	Title	: next_feature
	Usage	: $seqfeature =	$obj->next_feature();
	Function: Returns the next feature available in	the analysis result, or
		  undef	if there are no	more features.
	Example	:
	Returns	: A Bio::SeqFeatureI implementing object, or undef if there are	no
		  more features.
	Args	: none

perl v5.32.1			  2019-12-07	    Bio::SeqAnalysisParserI(3)

NAME | SYNOPSIS | DESCRIPTION | FEEDBACK | AUTHOR - Hilmar Lapp, Jason Stajich | APPENDIX

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